python3 src/predict.py \
> --enhancers DIPG/ABC_output/Neighborhoods/EnhancerList.txt \
> --genes DIPG/ABC_output/Neighborhoods/GeneList.txt \
> --HiCdir DIPG/input_data/HiC/raw/ \
> --hic_resolution 5000 \
> --scale_hic_using_powerlaw \
> --threshold .02 \
> --cellType E3371K27M \
> --outdir DIPG/ABC_output/Predictions/ \
> --make_all_putative
reading genes
reading enhancers
Making predictions for chromosome: chr17
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr17/chr17.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.595400333404541
HiC Matrix has row sums of 1862.8366265197753, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3242775 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.126204252243042
HiC added to predictions table. Elapsed time: 2.452784299850464
HiC Complete
Completed chromosome: chr17. Elapsed time: 10.526445388793945

Making predictions for chromosome: chr7
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr7/chr7.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 4.790992259979248
HiC Matrix has row sums of 1995.5095329172382, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 7391896 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 5.008707761764526
HiC added to predictions table. Elapsed time: 2.7514290809631348
HiC Complete
Completed chromosome: chr7. Elapsed time: 16.02497410774231

Making predictions for chromosome: chr22
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr22/chr22.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 0.6104254722595215
HiC Matrix has row sums of 2462.539801718806, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 1479373 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 0.8214213848114014
HiC added to predictions table. Elapsed time: 0.9709851741790771
HiC Complete
Completed chromosome: chr22. Elapsed time: 4.107322931289673

Making predictions for chromosome: chr18
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr18/chr18.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.4836575984954834
HiC Matrix has row sums of 1336.4652503016298, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3001337 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.0175423622131348
HiC added to predictions table. Elapsed time: 0.9745612144470215
HiC Complete
Completed chromosome: chr18. Elapsed time: 5.525629758834839

Making predictions for chromosome: chr15
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr15/chr15.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.9200904369354248
HiC Matrix has row sums of 1826.2255878774924, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3577071 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.336911916732788
HiC added to predictions table. Elapsed time: 1.619476079940796
HiC Complete
Completed chromosome: chr15. Elapsed time: 8.271932601928711

Making predictions for chromosome: chr11
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr11/chr11.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 3.418785572052002
HiC Matrix has row sums of 1737.3676537735346, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 5745287 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 3.9936869144439697
HiC added to predictions table. Elapsed time: 3.0636868476867676
HiC Complete
Completed chromosome: chr11. Elapsed time: 14.807864904403687

Making predictions for chromosome: chr10
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr10/chr10.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 3.1262118816375732
HiC Matrix has row sums of 1670.924667443995, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 5630844 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 3.8438384532928467
HiC added to predictions table. Elapsed time: 1.9274606704711914
HiC Complete
Completed chromosome: chr10. Elapsed time: 11.547400712966919

Making predictions for chromosome: chr13
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr13/chr13.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.5997390747070312
HiC Matrix has row sums of 1003.5671665422119, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3150935 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.3841841220855713
HiC added to predictions table. Elapsed time: 1.0804293155670166
HiC Complete
Completed chromosome: chr13. Elapsed time: 6.3783345222473145

Making predictions for chromosome: chrX
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chrX/chrX.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 2.5769197940826416
HiC Matrix has row sums of 916.6882453939974, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 4555828 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 3.750195026397705
HiC added to predictions table. Elapsed time: 1.2848665714263916
HiC Complete
Completed chromosome: chrX. Elapsed time: 9.126367330551147

Making predictions for chromosome: chr8
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr8/chr8.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 3.69053053855896
HiC Matrix has row sums of 1576.284960351589, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 6140784 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 4.3278648853302
HiC added to predictions table. Elapsed time: 2.3899121284484863
HiC Complete
Completed chromosome: chr8. Elapsed time: 13.077553987503052

Making predictions for chromosome: chr3
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr3/chr3.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 4.709761619567871
HiC Matrix has row sums of 1514.2904096524455, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 8113923 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 5.709414005279541
HiC added to predictions table. Elapsed time: 3.2483949661254883
HiC Complete
Completed chromosome: chr3. Elapsed time: 17.896188974380493

Making predictions for chromosome: chr5
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr5/chr5.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 4.56579065322876
HiC Matrix has row sums of 1615.650225214133, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 7965914 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 5.390728235244751
HiC added to predictions table. Elapsed time: 2.989220142364502
HiC Complete
Completed chromosome: chr5. Elapsed time: 16.4359393119812

Making predictions for chromosome: chr19
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr19/chr19.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.1199641227722168
HiC Matrix has row sums of 2118.1108999428952, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 2536521 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 1.3841588497161865
HiC added to predictions table. Elapsed time: 2.081949472427368
HiC Complete
Completed chromosome: chr19. Elapsed time: 8.21707820892334

Making predictions for chromosome: chr16
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr16/chr16.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.7209649085998535
HiC Matrix has row sums of 1942.8680113256448, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3447195 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.1808383464813232
HiC added to predictions table. Elapsed time: 1.6044023036956787
HiC Complete
Completed chromosome: chr16. Elapsed time: 7.981534719467163

Making predictions for chromosome: chr6
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr6/chr6.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 4.909979581832886
HiC Matrix has row sums of 1962.3290202288767, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 8114851 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 5.540345907211304
HiC added to predictions table. Elapsed time: 3.1350207328796387
HiC Complete
Completed chromosome: chr6. Elapsed time: 17.704705238342285

Making predictions for chromosome: chr20
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr20/chr20.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.2047395706176758
HiC Matrix has row sums of 1753.3570704479305, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 2633551 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 1.494344711303711
HiC added to predictions table. Elapsed time: 0.8540475368499756
HiC Complete
Completed chromosome: chr20. Elapsed time: 4.9600114822387695

Making predictions for chromosome: chr4
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr4/chr4.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 4.248570919036865
HiC Matrix has row sums of 1297.3293834328256, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 7397158 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 5.370730638504028
HiC added to predictions table. Elapsed time: 2.310058832168579
HiC Complete
Completed chromosome: chr4. Elapsed time: 14.392668008804321

Making predictions for chromosome: chr1
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr1/chr1.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 7.181312084197998
HiC Matrix has row sums of 2283.120313726259, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 11009877 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 7.705347537994385
HiC added to predictions table. Elapsed time: 5.269496917724609
HiC Complete
Completed chromosome: chr1. Elapsed time: 27.8169162273407

Making predictions for chromosome: chr14
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr14/chr14.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 1.5431585311889648
HiC Matrix has row sums of 1156.8984891125122, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 3049638 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 2.221566677093506
HiC added to predictions table. Elapsed time: 1.5092990398406982
HiC Complete
Completed chromosome: chr14. Elapsed time: 7.424194097518921

Making predictions for chromosome: chr12
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr12/chr12.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 3.024580955505371
HiC Matrix has row sums of 1634.3896941974212, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 5678552 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 3.7780776023864746
HiC added to predictions table. Elapsed time: 2.6896181106567383
HiC Complete
Completed chromosome: chr12. Elapsed time: 12.933283805847168

Making predictions for chromosome: chr21
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr21/chr21.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 0.6781599521636963
HiC Matrix has row sums of 1812.4097497073167, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 1668844 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 0.8591644763946533
HiC added to predictions table. Elapsed time: 0.44057464599609375
HiC Complete
Completed chromosome: chr21. Elapsed time: 2.6194534301757812

Making predictions for chromosome: chr2
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr2/chr2.KRobserved.gz
Begin HiC
Loading HiC
hic.to.sparse: Elapsed time: 6.2712249755859375
HiC Matrix has row sums of 1620.347024590508, making doubly stochastic...
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:136: RuntimeWarning: invalid value encountered in less
  norms[norms < kr_cutoff] = np.nan
/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py:137: RuntimeWarning: invalid value encountered in greater_equal
  norms[norms >= kr_cutoff] = 1
HiC has 10075298 rows after windowing between 0 and 5000000
process.hic: Elapsed time: 7.429325819015503
HiC added to predictions table. Elapsed time: 3.9282379150390625
HiC Complete
Completed chromosome: chr2. Elapsed time: 22.885234832763672

Making predictions for chromosome: chr9
Making putative predictions table...
Using: DIPG/input_data/HiC/raw/chr9/chr9.VCobserved.gz
Begin HiC
Loading HiC
Traceback (most recent call last):
  File "src/predict.py", line 141, in <module>
    main()
  File "src/predict.py", line 103, in main
    this_chr = make_predictions(chromosome, this_enh, this_genes, args)
  File "/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/predictor.py", line 14, in make_predictions
    pred = add_hic_to_enh_gene_table(enhancers, genes, pred, hic_file, hic_norm_file, hic_is_vc, chromosome, args)
  File "/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/predictor.py", line 63, in add_hic_to_enh_gene_table
    gamma = args.hic_gamma)
  File "/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py", line 37, in load_hic
    HiC_sparse_mat = hic_to_sparse(hic_file, hic_norm_file, hic_resolution)
  File "/home/craig/Projects/DIPG/newpipeline/ABC-Enhancer-Gene-Prediction/src/hic.py", line 145, in hic_to_sparse
    header=None, engine='c', memory_map=True)
  File "/home/craig/.local/lib/python3.6/site-packages/pandas/io/parsers.py", line 685, in parser_f
    return _read(filepath_or_buffer, kwds)
  File "/home/craig/.local/lib/python3.6/site-packages/pandas/io/parsers.py", line 457, in _read
    parser = TextFileReader(fp_or_buf, **kwds)
  File "/home/craig/.local/lib/python3.6/site-packages/pandas/io/parsers.py", line 895, in __init__
    self._make_engine(self.engine)
  File "/home/craig/.local/lib/python3.6/site-packages/pandas/io/parsers.py", line 1135, in _make_engine
    self._engine = CParserWrapper(self.f, **self.options)
  File "/home/craig/.local/lib/python3.6/site-packages/pandas/io/parsers.py", line 1917, in __init__
    self._reader = parsers.TextReader(src, **kwds)
  File "pandas/_libs/parsers.pyx", line 382, in pandas._libs.parsers.TextReader.__cinit__
  File "pandas/_libs/parsers.pyx", line 629, in pandas._libs.parsers.TextReader._setup_parser_source
  File "/usr/lib/python3.6/gzip.py", line 163, in __init__
    fileobj = self.myfileobj = builtins.open(filename, mode or 'rb')
FileNotFoundError: [Errno 2] No such file or directory: 'DIPG/input_data/HiC/raw/chr9/chr9.VCobserved.gz'